A citation-based method for searching scientific literature

Danny W Rice, Andrew J Alverson, Aaron O Richardson, Gregory J Young, M Virginia Sanchez-Puerta, Jérôme Munzinger, Kerrie Barry, Jeffrey L Boore, Yan Zhang, Claude W dePamphilis, Eric B Knox, Jeffrey D Palmer. Science 2013
Times Cited: 181







List of co-cited articles
1076 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates.
Daniel B Sloan, Andrew J Alverson, John P Chuckalovcak, Martin Wu, David E McCauley, Jeffrey D Palmer, Douglas R Taylor. PLoS Biol 2012
295
42

Miniaturized mitogenome of the parasitic plant Viscum scurruloideum is extremely divergent and dynamic and has lost all nad genes.
Elizabeth Skippington, Todd J Barkman, Danny W Rice, Jeffrey D Palmer. Proc Natl Acad Sci U S A 2015
128
37

Insights into the evolution of mitochondrial genome size from complete sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae).
Andrew J Alverson, XiaoXin Wei, Danny W Rice, David B Stern, Kerrie Barry, Jeffrey D Palmer. Mol Biol Evol 2010
238
35

Origins and recombination of the bacterial-sized multichromosomal mitochondrial genome of cucumber.
Andrew J Alverson, Danny W Rice, Stephanie Dickinson, Kerrie Barry, Jeffrey D Palmer. Plant Cell 2011
150
27



Plant Mitochondrial Genomes: Dynamics and Mechanisms of Mutation.
José M Gualberto, Kathleen J Newton. Annu Rev Plant Biol 2017
163
24

Widespread horizontal transfer of mitochondrial genes in flowering plants.
Ulfar Bergthorsson, Keith L Adams, Brendan Thomason, Jeffrey D Palmer. Nature 2003
247
24


Ginkgo and Welwitschia Mitogenomes Reveal Extreme Contrasts in Gymnosperm Mitochondrial Evolution.
Wenhu Guo, Felix Grewe, Weishu Fan, Gregory J Young, Volker Knoop, Jeffrey D Palmer, Jeffrey P Mower. Mol Biol Evol 2016
79
25

Recombination and the maintenance of plant organelle genome stability.
Alexandre Maréchal, Normand Brisson. New Phytol 2010
255
19


Unparalleled replacement of native mitochondrial genes by foreign homologs in a holoparasitic plant.
M Virginia Sanchez-Puerta, Laura E García, Josefina Wohlfeiler, Luis F Ceriotti. New Phytol 2017
40
47


The complete sequence of the rice (Oryza sativa L.) mitochondrial genome: frequent DNA sequence acquisition and loss during the evolution of flowering plants.
Y Notsu, S Masood, T Nishikawa, N Kubo, G Akiduki, M Nakazono, A Hirai, K Kadowaki. Mol Genet Genomics 2002
309
19

Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella.
Ulfar Bergthorsson, Aaron O Richardson, Gregory J Young, Leslie R Goertzen, Jeffrey D Palmer. Proc Natl Acad Sci U S A 2004
125
19


Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
17


Evolution of mitochondrial gene content: gene loss and transfer to the nucleus.
Keith L Adams, Jeffrey D Palmer. Mol Phylogenet Evol 2003
388
17

Mitochondrial DNA of Vitis vinifera and the issue of rampant horizontal gene transfer.
Vadim V Goremykin, Francesco Salamini, Riccardo Velasco, Roberto Viola. Mol Biol Evol 2009
140
16

Massive mitochondrial gene transfer in a parasitic flowering plant clade.
Zhenxiang Xi, Yuguo Wang, Robert K Bradley, M Sugumaran, Christopher J Marx, Joshua S Rest, Charles C Davis. PLoS Genet 2013
74
21

Dynamic evolution of Geranium mitochondrial genomes through multiple horizontal and intracellular gene transfers.
Seongjun Park, Felix Grewe, Andan Zhu, Tracey A Ruhlman, Jamal Sabir, Jeffrey P Mower, Robert K Jansen. New Phytol 2015
50
32






The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
15


Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
15

Frequent, phylogenetically local horizontal transfer of the cox1 group I Intron in flowering plant mitochondria.
M Virginia Sanchez-Puerta, Yangrae Cho, Jeffrey P Mower, Andrew J Alverson, Jeffrey D Palmer. Mol Biol Evol 2008
89
15


Basic local alignment search tool.
S F Altschul, W Gish, W Miller, E W Myers, D J Lipman. J Mol Biol 1990
14

The massive mitochondrial genome of the angiosperm Silene noctiflora is evolving by gain or loss of entire chromosomes.
Zhiqiang Wu, Jocelyn M Cuthbert, Douglas R Taylor, Daniel B Sloan. Proc Natl Acad Sci U S A 2015
57
24

The plant mitochondrial genome: dynamics and maintenance.
José M Gualberto, Daria Mileshina, Clémentine Wallet, Adnan Khan Niazi, Frédérique Weber-Lotfi, André Dietrich. Biochimie 2014
116
14

The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats.
Andrew J Alverson, Shi Zhuo, Danny W Rice, Daniel B Sloan, Jeffrey D Palmer. PLoS One 2011
93
15


Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation.
Sergey Koren, Brian P Walenz, Konstantin Berlin, Jason R Miller, Nicholas H Bergman, Adam M Phillippy. Genome Res 2017
14

Horizontal acquisition of multiple mitochondrial genes from a parasitic plant followed by gene conversion with host mitochondrial genes.
Jeffrey P Mower, Saša Stefanović, Weilong Hao, Julie S Gummow, Kanika Jain, Dana Ahmed, Jeffrey D Palmer. BMC Biol 2010
75
18


BLAST+: architecture and applications.
Christiam Camacho, George Coulouris, Vahram Avagyan, Ning Ma, Jason Papadopoulos, Kevin Bealer, Thomas L Madden. BMC Bioinformatics 2009
13

Double-strand break repair processes drive evolution of the mitochondrial genome in Arabidopsis.
Jaime I Davila, Maria P Arrieta-Montiel, Yashitola Wamboldt, Jun Cao, Joerg Hagmann, Vikas Shedge, Ying-Zhi Xu, Detlef Weigel, Sally A Mackenzie. BMC Biol 2011
140
13

Horizontal gene transfer in eukaryotic evolution.
Patrick J Keeling, Jeffrey D Palmer. Nat Rev Genet 2008
748
13

Massive gene loss in mistletoe (Viscum, Viscaceae) mitochondria.
G Petersen, A Cuenca, I M Møller, O Seberg. Sci Rep 2015
50
26

Horizontal transfer of DNA from the mitochondrial to the plastid genome and its subsequent evolution in milkweeds (apocynaceae).
Shannon C K Straub, Richard C Cronn, Christopher Edwards, Mark Fishbein, Aaron Liston. Genome Biol Evol 2013
64
18

Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes.
Jeremy N Timmis, Michael A Ayliffe, Chun Y Huang, William Martin. Nat Rev Genet 2004
854
12

Plant genetics: gene transfer from parasitic to host plants.
Jeffrey P Mower, Sasa Stefanović, Gregory J Young, Jeffrey D Palmer. Nature 2004
118
12


Comparisons among two fertile and three male-sterile mitochondrial genomes of maize.
James O Allen, Christiane M Fauron, Patrick Minx, Leah Roark, Swetha Oddiraju, Guan Ning Lin, Louis Meyer, Hui Sun, Kyung Kim, Chunyan Wang,[...]. Genetics 2007
122
12


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.